Fitness for 5 genes in Bifidobacterium breve UCC2003

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500 ntBBR_RS11545 and BBR_RS11550 are separated by 148 nucleotidesBBR_RS11550 and BBR_RS11555 overlap by 4 nucleotidesBBR_RS11555 and BBR_RS11560 are separated by 14 nucleotidesBBR_RS11560 and BBR_RS11565 are separated by 8 nucleotides BBR_RS11545: BBR_RS11545 - glutamine amidotransferase, at 349,378 to 350,130 _RS11545 BBR_RS11550: BBR_RS11550 - hypothetical protein, at 350,279 to 350,563 _RS11550 BBR_RS11555: BBR_RS11555 - AarF/ABC1/UbiB kinase family protein, at 350,560 to 352,380 _RS11555 BBR_RS11560: BBR_RS11560 - LacI family transcriptional regulator, at 352,395 to 353,094 _RS11560 BBR_RS11565: BBR_RS11565 - hypothetical protein, at 353,103 to 355,021 _RS11565
Group Condition BBR_RS11545 BBR_RS11550 BBR_RS11555 BBR_RS11560 BBR_RS11565
chicken coculture chicken 2; day 7; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron N.D. -0.6 -0.6 +0.1 -0.1
nutrient dropout CDM1 without Phenylalanine N.D. -1.1 -0.5 +0.3 +0.0
stress Recovery broth with Vancomycin from Streptomyces orientalis 2e-04 mM N.D. -0.6 -0.6 +0.1 -0.0
chicken chicken 2; day 6; diet=StandardDiet; sample=FecalPellet N.D. -0.9 -0.2 +0.1 -0.1
mouse preculture cage3; mouse3; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs N.D. -0.5 -0.6 +0.0 +0.0
stress Recovery broth with Thioridazine 0.1 mM N.D. -0.9 +0.1 -0.1 -0.1
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day6 N.D. +0.2 -0.8 +0.0 -0.3
mouse diet=StandardDiet; sample=FecalPellet; mouse1; day4 N.D. +0.2 -0.4 -0.3 -0.2
nutrient dropout CDM1 with Glycine Leucine Cysteine Methionine Glutamate as the only aminos N.D. -0.6 -0.5 +0.2 +0.2
carbon source reconstituted MRS with Difucosyllactose 7.9 mM N.D. -1.2 +0.2 +0.2 +0.2
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse14; day3 N.D. -1.0 -0.2 +0.6 -0.0
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse11; day3 N.D. -1.0 +0.2 +0.2 +0.3
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day5 N.D. +0.6 -0.3 -0.3 -0.1
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day6 N.D. +0.5 -0.3 +0.0 -0.2
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day5 N.D. +0.5 -0.3 +0.1 -0.2
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day4 N.D. +0.6 -0.2 -0.0 -0.3
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day6 N.D. +0.6 -0.2 -0.0 -0.2
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day4 N.D. +0.8 -0.3 -0.2 -0.1
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day5 N.D. +0.8 -0.4 +0.1 -0.2
mouse diet=StandardDiet; sample=FecalPellet; mouse4; day5 N.D. +0.8 -0.1 +0.1 -0.3
mrs timecourse MRS Time48hr N.D. +0.4 -0.4 +0.4 +0.3
mouse preculture cage3; mouse2; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs N.D. +0.7 +0.1 -0.1 +0.2
nutrient dropout CDM1 without Cysteine N.D. +0.6 +0.2 +0.1 +0.2
nutrient dropout CDM1 without Lysine N.D. +0.4 +0.2 +0.2 +0.2
nutrient dropout CDM1 without Cytosine N.D. +0.3 +0.2 +0.2 +0.3
nutrient dropout control CDM1 N.D. +0.5 +0.2 +0.1 +0.3
nutrient dropout CDM1 without Nicotinate N.D. +0.5 +0.2 +0.2 +0.2
nutrient dropout CDM1 without Alanine N.D. +0.5 +0.2 +0.3 +0.2
nutrient dropout CDM1 without Cyanocobalamin N.D. +0.4 +0.2 +0.2 +0.3
nutrient dropout control CDM1 N.D. +0.5 +0.3 +0.3 +0.3
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